Directionality on reactions for enrichm pathway/explore? about enrichm HOT 2 CLOSED

Hi Thomas,

I'd love to include directionality but its not easy to do currently. The KEGG database provides directionality in its pathway maps, but the information is not easily accessed. You can find directionality if you parse pathway kgml files directly. However I suspect not providing the information openly is intentional, because the directionality of a reaction can depend on a lot of things and is rarely a "right" or "left" situation. The other choice would be to use KEGG's rpair database but to my knowledge support for that has been discontinued and they are no longer releasing updates. For now I'll add this as an enhancement and I'll look into it, but its unlikely to be in the next release as my thesis is looming and this is not a straight forward addition.

Thanks for the great suggestion though, I agree that it would be helpful

Thanks,
Joel

from enrichm.

Hi Joel,

Thanks for the response. I see and you are right - the computationally generated reaction maps are far from (likely) what happens in the real world!

Good luck with your thesis and looking forward to a new release of enrichm!

Best,
Thomas

from enrichm.